Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: cran: tidygraph
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/tidygraph
A Tidy API for Graph Manipulation
8 versions
Latest release: almost 2 years ago
56 dependent packages
48,898 downloads last month
Papers Mentioning tidygraph 23
10.3390/metabo9100200
The metaRbolomics Toolbox in Bioconductor and beyondCited by: 61
Author(s): Jan Stanstrup, Corey D. Broeckling, Rick Helmus, Nils Hoffmann, Ewy A. Mathé, Thomas Naake, Luca Nicolotti, Kristian Peters, Johannes Michael Rainer, Reza M. Salek, Tobias Schulze, Emma L. Schymanski, Michael A. Stravs, Etienne Thévenot, Hendrik Treutler, Ralf Weber, Egon Willighagen, Michael Witting, Steffen Neumann
Software Mentions: 92
Published: about 5 years ago
10.3389/fonc.2020.617890
Comparative Proteome Identifies Complement Component 3-Mediated Immune Response as Key Difference of Colon Adenocarcinoma and Rectal AdenocarcinomaCited by: 9
Author(s): Jun-Ze Liang, Xiaoling Liang, Liye Zhong, Chutian Wu, Jing Zhang, Yang Wang
Software Mentions: 30
Published: almost 4 years ago
10.1371/journal.pone.0244876
Predicting drug-metagenome interactions: Variation in the microbial β-glucuronidase level in the human gut metagenomesCited by: 12
Author(s): Moamen M. Elmassry, Sunghwan Kim, Ben Busby
Software Mentions: 16
Published: almost 4 years ago
10.3389/fmed.2021.644724
Exploring the Clinical Characteristics of COVID-19 Clusters Identified Using Factor Analysis of Mixed Data-Based Cluster AnalysisCited by: 10
Author(s): Han Liang, Pan Shen, Jiahui Yan, Yao Huang, Xin Ba, Wei Chen Lin, Hui Wang, Ying Huang, Kai Qin, Yu Wei, Zhe Chen, Shenghao Tu
Software Mentions: 12
Published: over 3 years ago
10.3390/genes9120569
NeVOmics: An Enrichment Tool for Gene Ontology and Functional Network Analysis and Visualization of Data from OMICs TechnologiesCited by: 13
Author(s): Eduardo Zúñiga-León, Ulises Carrasco-Navarro, Francisco Fierro
Software Mentions: 12
Published: almost 6 years ago
10.3390/jcm10184071
Diagnostic and Prognostic Potential of MiR-379/656 MicroRNA Cluster in Molecular Subtypes of Breast CancerCited by: 2
Author(s): Megha Lal, Asgar Hussain Ansari, Anurag Agrawal, Arijit Mukhopadhyay
Software Mentions: 12
Published: about 3 years ago
10.1099/mgen.0.000524
BSGatlas: a unified Bacillus subtilis genome and transcriptome annotation atlas with enhanced information accessCited by: 12
Author(s): Adrian Sven Geissler, Christian Anthon, Ferhat Alkan, Enrique González-Tortuero, Line Dahl Poulsen, Thomas Beuchert Kallehauge, Anne Breüner, Stefan E. Seemann, Jeppe Vinther, Jan Gorodkin
Software Mentions: 12
Published: almost 4 years ago
10.1093/gigascience/giy083
Clustering trees: a visualization for evaluating clusterings at multiple resolutionsCited by: 353
Author(s): Luke Zappia, Alicia Oshlack
Software Mentions: 9
Published: over 6 years ago
10.1371/journal.pone.0208370
Measuring popularity of ecological topics in a temporal dynamical knowledge networkCited by: 3
Author(s): Tian-Yuan Huang, Bin Zhao
Software Mentions: 8
Published: almost 6 years ago
10.1099/mgen.0.000244
Where the plasmids roam: large-scale sequence analysis reveals plasmids with large host rangesCited by: 10
Author(s): Lauren Brooks, Mo Kaze, Mark Sistrom
Software Mentions: 7
Published: almost 6 years ago
10.1038/s41598-021-97805-3
Differences and similarities in the conceptualization of COVID-19 and other diseases in the first Italian lockdownCited by: 6
Author(s): Claudia María, Ilenia Falcinelli, Arthur-Henri Michalland, Luca Tummolini, Anna M. Borghi
Software Mentions: 6
Published: about 3 years ago
10.3390/metabo11040194
Plasma Metabolomic Profiling in 1391 Subjects with Overweight and Obesity from the SPHERE StudyCited by: 12
Author(s): G. Frigerio, Chiara Favero, Diego Savino, Rosa Mercadante, Benedetta Albetti, Laura Dioni, Luisella Vigna, Valentina Bollati, Angela Cecilia Pesatori, Silvia Fustinoni
Software Mentions: 6
Published: over 3 years ago
10.1093/hmg/ddaa140
Motor neuron translatome reveals deregulation of SYNGR4 and PLEKHB1 in mutant TDP-43 amyotrophic lateral sclerosis modelsCited by: 13
Author(s): Rita F Marques, Jan Broder Engler, Katrin Küchler, Ross A. Jones, Thomas Lingner, Gabriela Salinas, Thomas H. Gillingwater, Manuel A. Friese, Kent E. Duncan
Software Mentions: 5
Published: over 4 years ago
10.3390/plants10040752
Genetic Diversity and Population Structure of Potato Germplasm in RDA-Genebank: Utilization for Breeding and ConservationCited by: 9
Author(s): Kyung-Jun Lee, Sebastin Raveendar, Gyu‐Taek Cho, Mun-Sup Yoon, Gi-An Lee, Do-Yoon Hyun
Software Mentions: 5
Published: over 3 years ago
10.3389/fmicb.2020.00681
Rhodobacterales and Rhizobiales Are Associated With Stony Coral Tissue Loss Disease and Its Suspected Sources of TransmissionCited by: 82
Author(s): Stephanie M. Rosales, Abigail S. Clark, Lindsay K. Huebner, Rob Ruzicka, Erinn M. Muller
Software Mentions: 5
Published: over 4 years ago
10.1371/journal.pone.0242955
Lessons from movement ecology for the return to work: Modeling contacts and the spread of COVID-19Cited by: 4
Author(s): Allison K. Shaw, Lauren A. White, Matthew Michalska‐Smith, Elizabeth T. Borer, Meggan E. Craft, Eric W. Seabloom, Emilie C. Snell‐Rood, Michael Travisano
Software Mentions: 5
Published: almost 4 years ago
10.1186/s12874-021-01352-4
Symptom clusters among cancer survivors: what can machine learning techniques tell us?Cited by: 6
Author(s): Koen Ilja Neijenhuijs, Carel F.W. Peeters, Henk van Weert, Pim Cuijpers, I. Verdonck-de Leeuw
Software Mentions: 4
Published: over 3 years ago
10.1111/mec.16029
The impact of indoor residual spraying on <i>Plasmodium falciparum</i> microsatellite variation in an area of high seasonal malaria transmission in Ghana, West AfricaCited by: 5
Author(s): Dionne C. Argyropoulos, Shazia Ruybal‐Pesántez, Samantha Deed, Abraham Oduro, Samuel Dadzie, Maxwell A. Appawu, Victor Asoala, Mercedes Pascual, Kwadwo A. Koram, Karen P. Day, Kathryn E. Tiedje
Software Mentions: 4
Published: over 3 years ago
10.1038/s41598-021-89126-2
HNF1A regulates colorectal cancer progression and drug resistance as a downstream of POU5F1Cited by: 7
Author(s): Shiki Fujino, Norikatsu Miyoshi, Aya Ito, Masayoshi Yasui, Chu Matsuda, Masayuki Ohue, Mamoru Uemura, Tsunekazu Mizushima, Yuichiro Doki, Hidetoshi Eguchi
Software Mentions: 3
Published: over 3 years ago
10.1371/journal.pone.0232512
Microbial biofilm community structure and composition on the lithic substrates of Herculaneum Suburban BathsCited by: 5
Author(s): Antonino De Natale, Bruno Hay Mele, Paola Cennamo, Angelo Del Mondo, Mariagioia Petraretti, Antonino Pollio
Software Mentions: 3
Published: over 4 years ago
10.1001/jamanetworkopen.2020.0512
Assessment of Electronic Health Record Search Patterns and Practices by Practitioners in a Large Integrated Health Care SystemCited by: 17
Author(s): Halley Ruppel, Aashish Bhardwaj, R. Manickam, Julia Adler‐Milstein, Marc Flagg, Manuel A. Ballesca, Jean‐Louis Vincent
Software Mentions: 2
Published: over 4 years ago
10.1371/journal.ppat.1007698
Proximity-dependent proteomics of the Chlamydia trachomatis inclusion membrane reveals functional interactions with endoplasmic reticulum exit sitesCited by: 24
Author(s): Mary S Dickinson, Lindsey Anderson, Bobbie-Jo M. Webb-Robertson, Joshua Hansen, Richard Smith, Aaron Wright, Kevin Hybiske
Software Mentions: 2
Published: over 5 years ago
10.3390/cancers13051096
Cross-Linking Ligation and Sequencing of Hybrids (qCLASH) Reveals an Unpredicted miRNA Targetome in Melanoma CellsCited by: 12
Author(s): Ines Kozar, Demetra Philippidou, Christiane Margue, Rolf Renne, Stephanie Kreis
Software Mentions: 1
Published: over 3 years ago